Analysis of interatomic Contacts of Structural Units in PDB entry:
8GM4


Contacts of Structural Units (CSU) are derived with the CSU software (Sobolev V., Sorokine A., Prilusky J., Abola E.E. and Edelman M. (1999) Automated analysis of interatomic contacts in proteins. Bioinformatics, 15, 327-332).
For CSU analysis of other PDB entry

This page provides analyses of contacts formed by:
For analysis of ligand-protein contacts, use: 3D structure can be seen in additional window with STING software for 8GM4 entry


Note, this PDB entry contains modified residue(s) PHOSPHOTHREONINE (TPO) . This residue is treated as heterogroup (ligand) both in the PDB entry and in LPC/CSU analysis.

There are 3 chains in PDB entry 8GM4 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 PHE 79LYS 347
A
 ILE 349GLN 722
B
 ASP 80LYS 148
Residue contacts

1. List of contacts for up to 10 consecutive residues:
Chain ID from residue number to residue number


2. Detailed analyses of contacts for any single residue:
Residue number chain ID
Back to top of page

There are 21 helices in PDB entry 8GM4. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
81 95Right-handed alpha
Helix 2
AA2
A
99 107Right-handed 310
Helix 3
AA3
A
160 164Right-handed 310
Helix 4
AA4
A
177 200Right-handed alpha
Helix 5
AA5
A
252 266Right-handed alpha
Helix 6
AA6
A
301 312Right-handed alpha
Helix 7
AA7
A
315 321Right-handed alpha
Helix 8
AA8
A
329 338Right-handed alpha
Helix 9
AA9
A
517 537Right-handed alpha
Helix 10
AB1
A
547 561Right-handed alpha
Helix 11
AB2
A
563 575Right-handed alpha
Helix 12
AB3
A
590 607Right-handed alpha
Helix 13
AB4
A
609 623Right-handed alpha
Helix 14
AB5
A
633 646Right-handed alpha
Helix 15
AB6
A
663 678Right-handed alpha
Helix 16
AB7
A
685 703Right-handed alpha
Helix 17
AB8
A
705 721Right-handed alpha
Helix 18
AB9
B
81 93Right-handed alpha
Helix 19
AC1
B
101 112Right-handed alpha
Helix 20
AC2
B
117 129Right-handed alpha
Helix 21
AC3
B
138 146Right-handed alpha
Back to top of page

There are 4 sheets in PDB entry 8GM4. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4,

There are 8 strands in AA1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
139 140first strand
Strand 2
A
144 151anti-parallel
Strand 3
A
165 172anti-parallel
Strand 4
A
225 230anti-parallel
Strand 5
A
213 216anti-parallel
Strand 6
A
110 118anti-parallel
Strand 7
A
123 133anti-parallel
Strand 8
A
144 151anti-parallel
Back to list of sheets
Back to top of page

There are 4 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
208 209first strand
Strand 2
A
281 282parallel
Strand 3
A
276 278anti-parallel
Strand 4
A
236 238anti-parallel
Back to list of sheets
Back to top of page

There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
270 273first strand
Strand 2
A
286 289anti-parallel
Back to list of sheets
Back to top of page

There are 2 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
99 100first strand
Strand 2
B
136 137anti-parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il